Hi Yotam, > I'm sorry but this is too complected. Currently, I can't afford the time > to learn another scripting languish. Consider gnuplot script files, > which are simply a list of gnuplot commands.
PyMOL understands two languages. The "PyMOL language" is indeed similar to gnuplot commands, that's what you usually type into the PyMOL command prompt or put into .pml script files. The other language is pure python (PyMOL API) and can be used to write more complicated routines (.py script files). http://pymolwiki.org/index.php/Running_Scripts > Sure you can do > some sophisticated stuff but you don't have to. All my files will be > simple atom list in xyz format (name \t x \t y \t z), and all I want to > do is select all the atoms of a certain name, color them and then rotate > the system. by "rotate the system" do you mean a movie-like 360° rotation? Then your simple list of PyMOL commands will be something like: # color everything gray and histidines blue color gray, all color blue, resn HIS # make 100 movie frames and do full rotation about Y-axis mset 1 x100 util.mroll mplay For documentation and more examples see: http://pymolwiki.org/index.php/Color http://pymolwiki.org/index.php/Util.mroll http://pymolwiki.org/index.php/Property_Selectors http://pymolwiki.org/index.php/Selection_Algebra Cheers, Thomas -- Thomas Holder MPI for Developmental Biology Spemannstr. 35 D-72076 Tübingen ------------------------------------------------------------------------------ Doing More with Less: The Next Generation Virtual Desktop What are the key obstacles that have prevented many mid-market businesses from deploying virtual desktops? How do next-generation virtual desktops provide companies an easier-to-deploy, easier-to-manage and more affordable virtual desktop model.http://www.accelacomm.com/jaw/sfnl/114/51426474/ _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
